Thu, 29 Nov 2018

Package REAT updated to version 2.2.0 with previous version 2.1.1 dated 2018-11-16

Title: Regional Economic Analysis Toolbox
Description: Collection of models and analysis methods used in regional and urban economics and (quantitative) economic geography, e.g. measures of inequality, regional disparities and convergence, regional specialization as well as accessibility and spatial interaction models.
Author: Thomas Wieland
Maintainer: Thomas Wieland <thomas.wieland.geo@googlemail.com>

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Package intccr updated to version 1.0.4 with previous version 1.0.3 dated 2018-08-30

Title: Semiparametric Competing Risks Regression under Interval Censoring
Description: Semiparametric regression models on the cumulative incidence function with interval-censored competing risks data as described in Bakoyannis, Yu, & Yiannoutsos (2017) <doi:10.1002/sim.7350>. The main function fits the proportional subdistribution hazards model (Fine-Gray model), the proportional odds model, and other models that belong to the class of semiparametric generalized odds rate transformation models.
Author: Giorgos Bakoyannis <gbakogia@iu.edu>, Jun Park <jp84@iu.edu>
Maintainer: Jun Park <jp84@iu.edu>

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Package findpython updated to version 1.0.4 with previous version 1.0.3 dated 2017-12-01

Title: Functions to Find an Acceptable Python Binary
Description: Package designed to find an acceptable python binary.
Author: Trevor L Davis and Paul Gilbert.
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>

Diff between findpython versions 1.0.3 dated 2017-12-01 and 1.0.4 dated 2018-11-29

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Package baRcodeR updated to version 0.1.1 with previous version 0.1.0 dated 2018-10-26

Title: Labelling, Tracking, and Collecting Data from Biological Samples
Description: Tools to generate unique identifiers and printable barcoded labels for sample management. The creation of unique ID codes and printable PDF files can be initiated by standard commands, user prompts, or through a GUI addin for R Studio. Both single-level and hierarchical labels can be created in the command line interactively or non-interactively.
Author: Yihan Wu [aut], Robert Colautti [aut, cre]
Maintainer: Robert Colautti <robert.colautti@queensu.ca>

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Package preference updated to version 1.0.2 with previous version 0.2.2 dated 2018-05-08

Title: 2-Stage Preference Trial Design and Analysis
Description: Design and analyze two-stage randomized trials with a continuous outcome measure. The package contains functions to compute the required sample size needed to detect a given preference, treatment, and selection effect; alternatively, the package contains functions that can report the study power given a fixed sample size. Finally, analysis functions are provided to test each effect using either summary data (i.e. means, variances) or raw study data.
Author: Briana Cameron [aut, cph], Denise Esserman [ctb], Michael Kane [cre, ctb]
Maintainer: Michael Kane <michael.kane@yale.edu>

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Package iotables updated to version 0.3.5 with previous version 0.3.4 dated 2018-09-14

Title: Importing and Manipulating Symmetric Input-Output Tables
Description: Pre-processing tasks related to working with Eurostat's symmetric input-output tables and provide basic input-output economics calculations. The package is a part of rOpenGov <http://ropengov.github.io/> to open source open government initiatives.
Author: Daniel Antal [aut, cre]
Maintainer: Daniel Antal <daniel.antal@ceemid.eu>

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New package vctrs with initial version 0.1.0
Package: vctrs
Title: Vector Helpers
Version: 0.1.0
Authors@R: c( person("Hadley", "Wickham", , "hadley@rstudio.com", role = c("aut", "cre")), person("RStudio", role = "cph") )
Description: Defines new notions of prototype and size that are used to provide tools for consistent and well-founded type-coercion and size-recycling, and are in turn connected to ideas of type- and size-stability useful for analyzing function interfaces.
License: GPL-3
URL: https://github.com/r-lib/vctrs
BugReports: https://github.com/r-lib/vctrs/issues
Depends: R (>= 3.1)
Imports: backports, digest, glue, rlang, zeallot
Suggests: covr, generics, knitr, pillar, pkgdown, rmarkdown, testthat, tibble
VignetteBuilder: knitr
Encoding: UTF-8
Language: en-GB
LazyData: true
RoxygenNote: 6.1.1
NeedsCompilation: yes
Packaged: 2018-11-19 14:40:32 UTC; hadley
Author: Hadley Wickham [aut, cre], RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Repository: CRAN
Date/Publication: 2018-11-29 17:10:03 UTC

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Package RiemBase updated to version 0.2.1 with previous version 0.2.0 dated 2018-11-17

Title: Functions and C++ Header Files for Computation on Manifolds
Description: We provide a number of algorithms to estimate fundamental statistics including Fréchet mean and geometric median for manifold-valued data. Also, C++ header files are contained that implement elementary operations on manifolds such as Sphere, Grassmann, and others. See Bhattacharya and Bhattacharya (2012) <doi:10.1017/CBO9781139094764> if you are interested in statistics on manifolds, and Absil et al (2007) <isbn:978-0-691-13298-3> on computational aspects of optimization on matrix manifolds.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>

Diff between RiemBase versions 0.2.0 dated 2018-11-17 and 0.2.1 dated 2018-11-29

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Package cubature updated to version 2.0.1 with previous version 2.0 dated 2018-11-23

Title: Adaptive Multivariate Integration over Hypercubes
Description: R wrappers around the cubature C library of Steven G. Johnson for adaptive multivariate integration over hypercubes and the Cuba C library of Thomas Hahn for deterministic and Monte Carlo integration. Scalar and vector interfaces for cubature and Cuba routines are provided; the vector interfaces are highly recommended as demonstrated in the package vignette.
Author: Balasubramanian Narasimhan [aut, cre], Manuel Koller [ctb], Steven G. Johnson [aut], Thomas Hahn [aut], Annie Bouvier [aut], Kiên Kiêu [aut], Simen Gaure [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.stanford.edu>

Diff between cubature versions 2.0 dated 2018-11-23 and 2.0.1 dated 2018-11-29

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New package wiseR with initial version 1.0.1
Package: wiseR
Type: Package
Title: A Shiny Application for End-to-End Bayesian Decision Network Analysis and Web-Deployment
Version: 1.0.1
Author: Tavpritesh Sethi [aut, cre], Shubham Maheshwari [aut]
Authors@R: c( person("Tavpritesh", "Sethi", role = c("aut", "cre"), email = "tavpriteshsethi@iiitd.ac.in"), person("Shubham", "Maheshwari", role = c("aut"), email = "shubham14101@iiitd.ac.in") )
Maintainer: Tavpritesh Sethi <tavpriteshsethi@iiitd.ac.in>
Contact: Tavpritesh Sethi<tavpriteshsethi@iiitd.ac.in>,Shubham Maheshwari<shubham14101@iiitd.ac.in>
Description: A Shiny application for learning Bayesian Decision Networks from data. This package can be used for probabilistic reasoning (in the observational setting), causal inference (in the presence of interventions) and learning policy decisions (in Decision Network setting). Functionalities include end-to-end implementations for data-preprocessing, structure-learning, exact inference, approximate inference, extending the learned structure to Decision Networks and policy optimization using statistically rigorous methods such as bootstraps, resampling, ensemble-averaging and cross-validation. In addition to Bayesian Decision Networks, it also features correlation networks, community-detection, graph visualizations, graph exports and web-deployment of the learned models as Shiny dashboards.
biocViews:
Depends: R (>= 3.5.0)
Imports: Rgraphviz, RBGL, graph, bnlearn, HydeNet, rhandsontable, shiny, shinydashboard, dplyr, visNetwork, shinyWidgets, missRanger, tools, shinyalert, shinycssloaders, rintrojs, arules, psych, DescTools, DT, linkcomm, igraph, parallel, shinyBS
URL: https://github.com/SAFE-ICU/wiseR
BugReports: https://github.com/SAFE-ICU/wiseR/issues
Suggests: knitr,rmarkdown, rcompanion
License: GPL-3 | file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 6.1.0
NeedsCompilation: no
Packaged: 2018-11-19 04:50:39 UTC; JOHAN LIBERT
Repository: CRAN
Date/Publication: 2018-11-29 16:10:03 UTC

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Package basicMCMCplots updated to version 0.1.1 with previous version 0.1.0 dated 2018-09-03

Title: Trace Plots, Density Plots and Chain Comparisons for MCMC Samples
Description: Provides a function for examining posterior MCMC samples from a single chain using trace plots and density plots, and from multiple chains by comparing posterior medians and credible intervals from each chain. These plotting functions have a variety of options, such as figure sizes, legends, parameters to plot, and saving plots to file. Functions interface with the NIMBLE software package, see de Valpine, Turek, Paciorek, Anderson-Bergman, Temple Lang and Bodik (2017) <doi:10.1080/10618600.2016.1172487>.
Author: Daniel Turek [aut, cre]
Maintainer: Daniel Turek <danielturek@gmail.com>

Diff between basicMCMCplots versions 0.1.0 dated 2018-09-03 and 0.1.1 dated 2018-11-29

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Package WebPower updated to version 0.5.2 with previous version 0.5 dated 2018-04-16

Title: Basic and Advanced Statistical Power Analysis
Description: This is a collection of tools for conducting both basic and advanced statistical power analysis including correlation, proportion, t-test, one-way ANOVA, two-way ANOVA, linear regression, logistic regression, Poisson regression, mediation analysis, longitudinal data analysis, structural equation modeling and multilevel modeling. It also serves as the engine for conducting power analysis online at <https://webpower.psychstat.org>.
Author: Zhiyong Zhang [aut, cre], Yujiao Mai [aut], Miao Yang [ctb]
Maintainer: Zhiyong Zhang <johnnyzhz@gmail.com>

Diff between WebPower versions 0.5 dated 2018-04-16 and 0.5.2 dated 2018-11-29

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Package tidytree updated to version 0.2.0 with previous version 0.1.9 dated 2018-06-13

Title: A Tidy Tool for Phylogenetic Tree Data Manipulation
Description: Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data.
Author: Guangchuang Yu [aut, cre, cph] (<https://orcid.org/0000-0002-6485-8781>), Bradley Jones [ctb], Zebulun Arendsee [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>

Diff between tidytree versions 0.1.9 dated 2018-06-13 and 0.2.0 dated 2018-11-29

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New package textfeatures with initial version 0.3.0
Package: textfeatures
Type: Package
Title: Extracts Features from Text
Version: 0.3.0
Authors@R: person("Michael Wayne", "Kearney", , "kearneymw@missouri.edu", role = c("aut", "cre"), comment = c(ORCID = "0000-0002-0730-4694"))
Description: A tool for extracting some generic features (e.g., number of words, line breaks, characters per word, URLs, lower case, upper case, commas, periods, exclamation points, etc.) from strings of text.
License: MIT + file LICENSE
URL: https://github.com/mkearney/textfeatures
BugReports: https://github.com/mkearney/textfeatures/issues
Depends: R (>= 3.1.0)
Imports: dplyr, purrr, rlang, syuzhet, text2vec, tfse, tibble, tokenizers, utils, stats
Suggests: knitr, roxygen2, testthat, covr
Encoding: UTF-8
LazyData: yes
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2018-11-29 15:15:55 UTC; kearneymw
Author: Michael Wayne Kearney [aut, cre] (<https://orcid.org/0000-0002-0730-4694>)
Maintainer: Michael Wayne Kearney <kearneymw@missouri.edu>
Repository: CRAN
Date/Publication: 2018-11-29 15:50:03 UTC

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Package selectapref updated to version 0.1.1 with previous version 0.1.0 dated 2017-04-25

Title: Analysis of Field and Laboratory Foraging
Description: Provides indices such as Manly's alpha, foraging ratio, and Ivlev's selectivity to allow for analysis of dietary selectivity and preference. Can accommodate multiple experimental designs such as constant prey number of prey depletion.Please contact the package maintainer with any publications making use of this package in an effort to maintain a repository of dietary selections studies.
Author: Jason Richardson [aut, cre]
Maintainer: Jason Richardson <jcrichardson617@gmail.com>

Diff between selectapref versions 0.1.0 dated 2017-04-25 and 0.1.1 dated 2018-11-29

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Package RStorm updated to version 1.0 with previous version 0.902 dated 2013-08-28

Title: Simulate and Develop Streaming Processing
Description: While streaming processing provides opportunities to deal with extremely large and ever growing data sets in (near) real time, the development of streaming algorithms for complex models is often cumbersome: the software packages that facilitate streaming processing in production environments do not provide statisticians with the simulation, estimation, and plotting tools they are used to. Developers of streaming algorithms would thus benefit from the flexibility of [R] to create, plot and compute data while developing streaming algorithms. Package RStorm implements a streaming architecture modeled on Storm for easy development and testing of streaming algorithms in [R]. RStorm is not intended as a production package, but rather a development tool for streaming algorithms.
Author: Maurits Kaptein
Maintainer: Maurits Kaptein <maurits@mauritskaptein.com>

Diff between RStorm versions 0.902 dated 2013-08-28 and 1.0 dated 2018-11-29

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New package MCI2 with initial version 1.0.0
Package: MCI2
Type: Package
Title: Market Area Models for Retail and Service Locations
Version: 1.0.0
Date: 2018-11-19
Author: Thomas Wieland
Maintainer: Thomas Wieland <thomas.wieland.geo@googlemail.com>
Description: Market area models are used to analyze and predict store choices and market areas concerning retail and service locations. This package is a more user-friendly wrapper of the functions in the package 'MCI' (Wieland 2017) providing market area analysis using the Huff Model or the Multiplicative Competitive Interaction (MCI) Model. In 'MCI2', also a function for creating transport costs matrices is provided.
Imports: MCI, REAT, tmaptools, osrm, reshape
License: GPL (>= 2)
NeedsCompilation: no
Packaged: 2018-11-19 12:48:37 UTC; User
Repository: CRAN
Date/Publication: 2018-11-29 16:00:13 UTC

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New package leaflet.opacity with initial version 0.1.0
Package: leaflet.opacity
Type: Package
Title: Opacity Controls for Leaflet Maps
Version: 0.1.0
Date: 2018-11-07
Authors@R: c( person("Marc", "Becker", ,"marc.becker@uni-jena.de", role = c("aut", "cre"), comment = "R interface"), person(family = "LizardTech", role = c("aut", "cph"), comment = "Leaflet.OpacityControls JavaScript library") )
Description: Extends the 'leaflet' R package with the 'Leaflet.OpacityControls' JavaScript plugin. Adds controls to the leaflet map for adjusting the opacity of a layer.
BugReports: https://github.com/be-marc/leaflet.opacity
License: GPL-3
Imports: htmltools, htmlwidgets
Suggests: leaflet, raster, rgdal, magrittr, testthat, knitr, rmarkdown
Encoding: UTF-8
LazyData: true
VignetteBuilder: knitr
RoxygenNote: 6.1.1
NeedsCompilation: no
Packaged: 2018-11-19 14:02:57 UTC; marc
Author: Marc Becker [aut, cre] (R interface), LizardTech [aut, cph] (Leaflet.OpacityControls JavaScript library)
Maintainer: Marc Becker <marc.becker@uni-jena.de>
Repository: CRAN
Date/Publication: 2018-11-29 16:00:10 UTC

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Package Rsomoclu updated to version 1.7.5.2 with previous version 1.7.5.1 dated 2018-03-05

Title: Somoclu
Description: Somoclu is a massively parallel implementation of self-organizing maps. It exploits multicore CPUs and it can be accelerated by CUDA. The topology of the map can be planar or toroid and the grid of neurons can be rectangular or hexagonal . Details refer to (Peter Wittek, et al (2017)) <doi:10.18637/jss.v078.i09>.
Author: Peter Wittek [aut], Shichao Gao [cre]
Maintainer: Shichao Gao <xgdgsc@gmail.com>

Diff between Rsomoclu versions 1.7.5.1 dated 2018-03-05 and 1.7.5.2 dated 2018-11-29

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Package kst updated to version 0.5-1 with previous version 0.5-0 dated 2018-09-19

Title: Knowledge Space Theory
Description: Knowledge space theory by Doignon and Falmagne (1999) <doi:10.1007/978-3-642-58625-5> is a set- and order-theoretical framework, which proposes mathematical formalisms to operationalize knowledge structures in a particular domain. The 'kst' package provides basic functionalities to generate, handle, and manipulate knowledge structures and knowledge spaces.
Author: Christina Stahl [aut], David Meyer [aut], Cord Hockemeyer [aut, cre]
Maintainer: Cord Hockemeyer <cord.hockemeyer@uni-graz.at>

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Package changepoint.mv updated to version 1.0.1 with previous version 1.0.0 dated 2018-11-26

Title: Changepoint Analysis for Multivariate Time Series
Description: Detects the Most Recent Changepoints (mrc) for panel data consisting of many related univariate timeseries using the method developed by Bardwell, Fearnhead, Eckley, Smith and Spott (2018) <doi:10.1080/00401706.2018.1438926>.
Author: Lawrence Bardwell <l.bardwell@lancaster.ac.uk> [aut], Idris Eckley <i.eckley@lancaster.ac.uk> [ths,ctb], Paul Fearnhead <p.fearnhead@lancaster.ac.uk> [ths,ctb], Daniel Grose <dan.grose@lancaster.ac.uk> [aut,cre]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>

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Package tmod updated to version 0.40 with previous version 0.36 dated 2018-03-10

Title: Feature Set Enrichment Analysis for Metabolomics and Transcriptomics
Description: Methods and feature set definitions for feature or gene set enrichment analysis in transcriptional and metabolic profiling data. Package includes tests for enrichment based on ranked lists of features, functions for visualisation and multivariate functional analysis.
Author: January Weiner
Maintainer: January Weiner <january.weiner@gmail.com>

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Package rWind updated to version 1.0.4 with previous version 1.0.3 dated 2018-10-24

Title: Download, Edit and Include Wind Data in Ecological and Evolutionary Analysis
Description: Tools for download and manage surface wind data from the Global Forecasting System <https://www.ncdc.noaa.gov/data-access/model-data/model-datasets/global-forcast-system-gfs> and to compute wind connectivity between locations.
Author: Javier Fernández-López [aut, cre], Klaus Schliep [aut]
Maintainer: Javier Fernández-López <jflopez.bio@gmail.com>

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Package generics updated to version 0.0.2 with previous version 0.0.1 dated 2018-10-26

Title: Common S3 Generics not Provided by Base R Methods Related to Model Fitting
Description: In order to reduce potential package dependencies and conflicts, generics provides a number of commonly used S3 generics.
Author: Max Kuhn [aut, cre], Hadley Wickham [aut], Davis Vaughan [aut], RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>

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Package meta updated to version 4.9-3 with previous version 4.9-2 dated 2018-06-07

Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015): - fixed effect and random effects meta-analysis; - several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble); - statistical tests and trim-and-fill method to evaluate bias in meta-analysis; - import data from 'RevMan 5'; - prediction interval, Hartung-Knapp and Paule-Mandel method for random effects model; - cumulative meta-analysis and leave-one-out meta-analysis; - meta-regression (if R package 'metafor' is installed); - generalised linear mixed models (if R packages 'metafor', 'lme4', 'numDeriv', and 'BiasedUrn' are installed); - produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut]
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>

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Package IRdisplay updated to version 0.7.0 with previous version 0.6.3 dated 2018-11-27

Title: 'Jupyter' Display Machinery
Description: An interface to the rich display capabilities of 'Jupyter' front-ends (e.g. 'Jupyter Notebook') <https://jupyter.org>. Designed to be used from a running 'IRkernel' session <https://irkernel.github.io>.
Author: Thomas Kluyver [aut, cph], Philipp Angerer [aut, cph, cre] (<https://orcid.org/0000-0002-0369-2888>), Jan Schulz [aut, cph]
Maintainer: Philipp Angerer <phil.angerer@gmail.com>

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Package epoc updated to version 0.2.6-1 with previous version 0.2.5-1 dated 2013-08-26

Title: Endogenous Perturbation Analysis of Cancer
Description: Estimates sparse matrices A or G using fast lasso regression from mRNA transcript levels Y and CNA profiles U. Two models are provided, EPoC A where AY + U + R = 0 and EPoC G where Y = GU + E, the matrices R and E are so far treated as noise. For details see the manual page of 'lassoshooting' and the article Rebecka Jörnsten, Tobias Abenius, Teresia Kling, Linnéa Schmidt, Erik Johansson, Torbjörn E M Nordling, Bodil Nordlander, Chris Sander, Peter Gennemark, Keiko Funa, Björn Nilsson, Linda Lindahl, Sven Nelander (2011) <doi:10.1038/msb.2011.17>.
Author: Rebecka Jornsten, Tobias Abenius, Sven Nelander
Maintainer: Tobias Abenius <Tobias.Abenius@Chalmers.se>

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Package ectotemp updated to version 0.1.2 with previous version 0.1.1 dated 2018-10-08

Title: Quantitative Estimates of Small Ectotherm Temperature Regulation Effectiveness
Description: Easy and rapid quantitative estimation of small terrestrial ectotherm temperature regulation effectiveness in R. ectotemp is built on classical formulas that evaluate temperature regulation by means of various indices, inaugurated by Hertz et al. (1993) <doi: 10.1086/285573>. Options for bootstrapping and permutation testing are included to test hypotheses about divergence between organisms, species or populations.
Author: Wouter Beukema [aut, cre]
Maintainer: Wouter Beukema <wouter.beukema@gmail.com>

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Package ddsPLS updated to version 1.0.4 with previous version 1.0.3 dated 2018-11-09

Title: Multi-Data-Driven Sparse PLS Robust to Missing Samples
Description: Allows to build Multi-Data-Driven Sparse PLS models. Multi-blocks with high-dimensional settings are particularly sensible to this.
Author: Hadrien Lorenzo [aut, cre]
Maintainer: Hadrien Lorenzo <hadrien.lorenzo.2015@gmail.com>

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Package cudaBayesreg (with last version 0.3-16) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2015-01-07 0.3-16
2014-03-03 0.3-15
2011-10-19 0.3-13
2011-08-30 0.3-12
2011-06-20 0.3-11
2011-06-15 0.3-10
2010-11-12 0.3-9
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2010-04-27 0.3-5
2010-04-16 0.3-3
2010-01-13 0.3-2
2009-12-21 0.2-1
2009-10-19 0.1-1

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Package cudaBayesregData (with last version 0.3-11) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2012-10-30 0.3-11
2011-06-15 0.3-10
2010-09-08 0.3-8

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Package psica updated to version 1.0.1 with previous version 1.0.0 dated 2018-11-19

Title: Decision Tree Analysis for Probabilistic Subgroup Identification with Multiple Treatments
Description: In the situation when multiple alternative treatments or interventions available, different population groups may respond differently to different treatments. This package implements a method that discovers the population subgroups in which a certain treatment has a better effect than the other alternative treatments. This is done by first estimating the treatment effect for a given treatment and its uncertainty by computing random forests, and the resulting model is summarized by a decision tree in which the probabilities that the given treatment is best for a given subgroup is shown in the corresponding terminal node of the tree.
Author: Oleg Sysoev, Krzysztof Bartoszek, Katarina Ekholm Selling and Lotta Ekstrom
Maintainer: Oleg Sysoev <Oleg.Sysoev@liu.se>

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Package ojUtils (with last version 0.1.0) was removed from CRAN

Previous versions (as known to CRANberries) which should be available via the Archive link are:

2018-09-16 0.1.0

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Package SkewHyperbolic updated to version 0.4-0 with previous version 0.3-2 dated 2013-02-26

Title: The Skew Hyperbolic Student t-Distribution
Description: Functions are provided for the density function, distribution function, quantiles and random number generation for the skew hyperbolic t-distribution. There are also functions that fit the distribution to data. There are functions for the mean, variance, skewness, kurtosis and mode of a given distribution and to calculate moments of any order about any centre. To assess goodness of fit, there are functions to generate a Q-Q plot, a P-P plot and a tail plot.
Author: David Scott <d.scott@auckland.ac.nz>, Fiona Grimson
Maintainer: David Scott <d.scott@auckland.ac.nz>

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Package magicaxis updated to version 2.0.4 with previous version 2.0.3 dated 2017-09-19

Title: Pretty Scientific Plotting with Minor-Tick and Log Minor-Tick Support
Description: Functions to make useful (and pretty) plots for scientific plotting. Additional plotting features are added for base plotting, with particular emphasis on making attractive log axis plots.
Author: Aaron Robotham
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>

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Package fitplc updated to version 1.2-3 with previous version 1.1-7 dated 2017-03-02

Title: Fit Hydraulic Vulnerability Curves
Description: Fits Weibull or sigmoidal models to percent loss conductivity (plc) curves as a function of plant water potential, computes confidence intervals of parameter estimates and predictions with bootstrap or parametric methods, and provides convenient plotting methods.
Author: Remko Duursma [aut, cre]
Maintainer: Remko Duursma <remkoduursma@gmail.com>

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Package albopictus updated to version 0.5 with previous version 0.4 dated 2018-08-01

Title: Age-Structured Population Dynamics Model
Description: Implements discrete time deterministic and stochastic age-structured population dynamics models described in Erguler and others (2016) <doi:10.1371/journal.pone.0149282> and Erguler and others (2017) <doi:10.1371/journal.pone.0174293>.
Author: Kamil Erguler [aut, cre]
Maintainer: Kamil Erguler <k.erguler@cyi.ac.cy>

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Package circumplex updated to version 0.2.1 with previous version 0.2.0 dated 2018-10-26

Title: Analysis and Visualization of Circular Data
Description: Tools for analyzing and visualizing circular data, including scoring functions for relevant instruments and a generalization of the bootstrapped structural summary method from Zimmermann & Wright (2017) <doi:10.1177/1073191115621795> and functions for creating publication-ready tables and figures from the results. Future versions will include tools for circular fit and reliability analyses, as well as visualization enhancements.
Author: Jeffrey Girard [aut, cre] (<https://orcid.org/0000-0002-7359-3746>), Johannes Zimmermann [aut] (<https://orcid.org/0000-0001-6975-2356>), Aidan Wright [aut] (<https://orcid.org/0000-0002-2369-0601>)
Maintainer: Jeffrey Girard <me@jmgirard.com>

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Package sparklyr updated to version 0.9.3 with previous version 0.9.2 dated 2018-10-17

Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data processing, see <http://spark.apache.org>. This package supports connecting to local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end, and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut, cre], Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>), Kevin Ushey [aut], JJ Allaire [aut], Samuel Macedo [ctb], RStudio [cph], The Apache Software Foundation [aut, cph]
Maintainer: Javier Luraschi <javier@rstudio.com>

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Package revtools updated to version 0.3.0 with previous version 0.2.2 dated 2018-03-10

Title: Tools to Support Evidence Synthesis
Description: Researchers commonly need to summarize scientific information, a process known as 'evidence synthesis'. The first stage of a synthesis process (such as a systematic review or meta-analysis) is to download a list of references from academic search engines such as 'Web of Knowledge' or 'Scopus'. The traditional approach to systematic review is then to sort these data manually, first by locating and removing duplicated entries, and then screening to remove irrelevant content by viewing titles and abstracts (in that order). 'revtools' provides interfaces for each of these tasks. An alternative approach, however, is to draw on tools from machine learning to visualise patterns in the corpus. In this case, you can use 'revtools' to render ordinations of text drawn from article titles, keywords and abstracts, and interactively select or exclude individual references, words or topics.
Author: Martin J. Westgate [aut, cre]
Maintainer: Martin J. Westgate <martinjwestgate@gmail.com>

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Package phylocomr updated to version 0.1.2 with previous version 0.1.0 dated 2018-11-19

Title: Interface to 'Phylocom'
Description: Interface to 'Phylocom' (<http://phylodiversity.net/phylocom/>), a library for analysis of 'phylogenetic' community structure and character evolution. Includes low level methods for interacting with the three executables, as well as higher level interfaces for methods like 'aot', 'ecovolve', 'bladj', 'phylomatic', and more.
Author: Jeroen Ooms [aut], Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>), Cam Webb [cph] (Author of libphylocom (see AUTHORS and COPYRIGHT files for details)), David Ackerly [cph] (Author of libphylocom (see AUTHORS and COPYRIGHT files for details)), Steven Kembel [cph] (Author of libphylocom (see AUTHORS and COPYRIGHT files for details))
Maintainer: Scott Chamberlain <sckott@protonmail.com>

Diff between phylocomr versions 0.1.0 dated 2018-11-19 and 0.1.2 dated 2018-11-29

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Package celestial updated to version 1.4.6 with previous version 1.4.1 dated 2017-08-24

Title: Collection of Common Astronomical Conversion Routines and Functions
Description: Contains a number of common astronomy conversion routines, particularly the HMS and degrees schemes, which can be fiddly to convert between on mass due to the textural nature of the former. It allows users to coordinate match datasets quickly. It also contains functions for various cosmological calculations.
Author: Aaron Robotham
Maintainer: Aaron Robotham <aaron.robotham@uwa.edu.au>

Diff between celestial versions 1.4.1 dated 2017-08-24 and 1.4.6 dated 2018-11-29

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Package causaleffect updated to version 1.3.9 with previous version 1.3.8 dated 2018-05-29

Title: Deriving Expressions of Joint Interventional Distributions and Transport Formulas in Causal Models
Description: Functions for identification and transportation of causal effects. Provides a conditional causal effect identification algorithm (IDC) by Shpitser, I. and Pearl, J. (2006) <http://ftp.cs.ucla.edu/pub/stat_ser/r329-uai.pdf>, an algorithm for transportability from multiple domains with limited experiments by Bareinboim, E. and Pearl, J. (2014) <http://ftp.cs.ucla.edu/pub/stat_ser/r443.pdf> and a selection bias recovery algorithm by Bareinboim, E. and Tian, J. (2015) <http://ftp.cs.ucla.edu/pub/stat_ser/r445.pdf>. All of the previously mentioned algorithms are based on a causal effect identification algorithm by Tian , J. (2002) <http://ftp.cs.ucla.edu/pub/stat_ser/r309.pdf>.
Author: Santtu Tikka
Maintainer: Santtu Tikka <santtuth@gmail.com>

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